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    Results: 1 to 20 of 353

    1.

    Novel gene and gene model detection using a whole genome open reading frame analysis in proteomics.

    Fermin D, Allen BB, Blackwell TW, Menon R, Adamski M, Xu Y, Ulintz P, Omenn GS, States DJ.

    Genome Biol. 2006;7(4):R35. Epub 2006 Apr 28.

    PMID:
    16646984
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    2.

    Detection of alternative splice variants at the proteome level in Aspergillus flavus.

    Chang KY, Georgianna DR, Heber S, Payne GA, Muddiman DC.

    J Proteome Res. 2010 Mar 5;9(3):1209-17.

    PMID:
    20047314
    [PubMed - indexed for MEDLINE]
    3.

    Exploiting proteomic data for genome annotation and gene model validation in Aspergillus niger.

    Wright JC, Sugden D, Francis-McIntyre S, Riba-Garcia I, Gaskell SJ, Grigoriev IV, Baker SE, Beynon RJ, Hubbard SJ.

    BMC Genomics. 2009 Feb 4;10:61.

    PMID:
    19193216
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    4.

    [Correction of five different types of errors of model REFSEQs appeared in NCBI human gene database only by using two novel human genes C17orf32 and ZNF362].

    Zhang DL, Li YD, Ji L.

    Yi Chuan Xue Bao. 2004 Apr;31(4):325-34. Chinese.

    PMID:
    15487498
    [PubMed - indexed for MEDLINE]
    5.

    Improving gene annotation using peptide mass spectrometry.

    Tanner S, Shen Z, Ng J, Florea L, Guigó R, Briggs SP, Bafna V.

    Genome Res. 2007 Feb;17(2):231-9. Epub 2006 Dec 22.

    PMID:
    17189379
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    6.

    Integrating alternative splicing detection into gene prediction.

    Foissac S, Schiex T.

    BMC Bioinformatics. 2005 Feb 10;6:25.

    PMID:
    15705189
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    7.

    The proteome of Toxoplasma gondii: integration with the genome provides novel insights into gene expression and annotation.

    Xia D, Sanderson SJ, Jones AR, Prieto JH, Yates JR, Bromley E, Tomley FM, Lal K, Sinden RE, Brunk BP, Roos DS, Wastling JM.

    Genome Biol. 2008;9(7):R116. Epub 2008 Jul 21.

    PMID:
    18644147
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    8.

    Gene model detection using mass spectrometry.

    Nanduri B, Wang N, Lawrence ML, Bridges SM, Burgess SC.

    Methods Mol Biol. 2010;604:137-44.

    PMID:
    20013369
    [PubMed - indexed for MEDLINE]
    9.

    Proteogenomics: needs and roles to be filled by proteomics in genome annotation.

    Ansong C, Purvine SO, Adkins JN, Lipton MS, Smith RD.

    Brief Funct Genomic Proteomic. 2008 Jan;7(1):50-62. Epub 2008 Mar 10. Review.

    PMID:
    18334489
    [PubMed - indexed for MEDLINE]
    Free Article
    10.

    A compatible exon-exon junction database for the identification of exon skipping events using tandem mass spectrum data.

    Mo F, Hong X, Gao F, Du L, Wang J, Omenn GS, Lin B.

    BMC Bioinformatics. 2008 Dec 16;9:537.

    PMID:
    19087293
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    11.

    LC-MS/MS-based proteome profiling in Daphnia pulex and Daphnia longicephala: the Daphnia pulex genome database as a key for high throughput proteomics in Daphnia.

    Fröhlich T, Arnold GJ, Fritsch R, Mayr T, Laforsch C.

    BMC Genomics. 2009 Apr 21;10:171.

    PMID:
    19383153
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    12.

    EPIC-DB: a proteomics database for studying Apicomplexan organisms.

    Madrid-Aliste CJ, Dybas JM, Angeletti RH, Weiss LM, Kim K, Simon I, Fiser A.

    BMC Genomics. 2009 Jan 21;10:38.

    PMID:
    19159464
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    13.

    Diversity of translation start sites may define increased complexity of the human short ORFeome.

    Oyama M, Kozuka-Hata H, Suzuki Y, Semba K, Yamamoto T, Sugano S.

    Mol Cell Proteomics. 2007 Jun;6(6):1000-6. Epub 2007 Feb 21.

    PMID:
    17317662
    [PubMed - indexed for MEDLINE]
    Free Article
    14.

    Genome annotation of Anopheles gambiae using mass spectrometry-derived data.

    Kalume DE, Peri S, Reddy R, Zhong J, Okulate M, Kumar N, Pandey A.

    BMC Genomics. 2005 Sep 19;6:128.

    PMID:
    16171517
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    15.

    Discovery and revision of Arabidopsis genes by proteogenomics.

    Castellana NE, Payne SH, Shen Z, Stanke M, Bafna V, Briggs SP.

    Proc Natl Acad Sci U S A. 2008 Dec 30;105(52):21034-8. Epub 2008 Dec 19.

    PMID:
    19098097
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    16.

    Overview of the HUPO Plasma Proteome Project: results from the pilot phase with 35 collaborating laboratories and multiple analytical groups, generating a core dataset of 3020 proteins and a publicly-available database.

    Omenn GS, States DJ, Adamski M, Blackwell TW, Menon R, Hermjakob H, Apweiler R, Haab BB, Simpson RJ, Eddes JS, Kapp EA, Moritz RL, Chan DW, Rai AJ, Admon A, Aebersold R, Eng J, Hancock WS, Hefta SA, Meyer H, Paik YK, Yoo JS, Ping P, Pounds J, Adkins J, Qian X, Wang R, Wasinger V, Wu CY, Zhao X, Zeng R, Archakov A, Tsugita A, Beer I, Pandey A, Pisano M, Andrews P, Tammen H, Speicher DW, Hanash SM.

    Proteomics. 2005 Aug;5(13):3226-45.

    PMID:
    16104056
    [PubMed - indexed for MEDLINE]
    17.

    Plasma Proteome Database as a resource for proteomics research.

    Muthusamy B, Hanumanthu G, Suresh S, Rekha B, Srinivas D, Karthick L, Vrushabendra BM, Sharma S, Mishra G, Chatterjee P, Mangala KS, Shivashankar HN, Chandrika KN, Deshpande N, Suresh M, Kannabiran N, Niranjan V, Nalli A, Prasad TS, Arun KS, Reddy R, Chandran S, Jadhav T, Julie D, Mahesh M, John SL, Palvankar K, Sudhir D, Bala P, Rashmi NS, Vishnupriya G, Dhar K, Reshma S, Chaerkady R, Gandhi TK, Harsha HC, Mohan SS, Deshpande KS, Sarker M, Pandey A.

    Proteomics. 2005 Aug;5(13):3531-6.

    PMID:
    16041672
    [PubMed - indexed for MEDLINE]
    18.

    Systematic analysis of human kinase genes: a large number of genes and alternative splicing events result in functional and structural diversity.

    Milanesi L, Petrillo M, Sepe L, Boccia A, D'Agostino N, Passamano M, Di Nardo S, Tasco G, Casadio R, Paolella G.

    BMC Bioinformatics. 2005 Dec 1;6 Suppl 4:S20.

    PMID:
    16351747
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    19.

    Whole genome searching with shotgun proteomic data: applications for genome annotation.

    Sevinsky JR, Cargile BJ, Bunger MK, Meng F, Yates NA, Hendrickson RC, Stephenson JL Jr.

    J Proteome Res. 2008 Jan;7(1):80-8. Epub 2007 Dec 7.

    PMID:
    18062665
    [PubMed - indexed for MEDLINE]
    20.

    Expressed peptide tags: an additional layer of data for genome annotation.

    Savidor A, Donahoo RS, Hurtado-Gonzales O, Verberkmoes NC, Shah MB, Lamour KH, McDonald WH.

    J Proteome Res. 2006 Nov;5(11):3048-58.

    PMID:
    17081056
    [PubMed - indexed for MEDLINE]

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